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Items: 44

1.

A Rare Cause for Recurrent Implant-Related Inflammation of Orbit: Dacryocystitis.

Gümüş ZB, Gümüş N.

J Craniofac Surg. 2018 Dec 13. doi: 10.1097/SCS.0000000000005059. [Epub ahead of print]

PMID:
30550443
2.

Comprehensive functional genomic resource and integrative model for the human brain.

Wang D, Liu S, Warrell J, Won H, Shi X, Navarro FCP, Clarke D, Gu M, Emani P, Yang YT, Xu M, Gandal MJ, Lou S, Zhang J, Park JJ, Yan C, Rhie SK, Manakongtreecheep K, Zhou H, Nathan A, Peters M, Mattei E, Fitzgerald D, Brunetti T, Moore J, Jiang Y, Girdhar K, Hoffman GE, Kalayci S, Gümüş ZH, Crawford GE; PsychENCODE Consortium, Roussos P, Akbarian S, Jaffe AE, White KP, Weng Z, Sestan N, Geschwind DH, Knowles JA, Gerstein MB.

Science. 2018 Dec 14;362(6420). pii: eaat8464. doi: 10.1126/science.aat8464.

PMID:
30545857
3.

Rare, Pathogenic Germline Variants in Fanconi Anemia Genes Increase Risk for Squamous Lung Cancer.

Esai Selvan M, Klein RJ, Gümüş ZH.

Clin Cancer Res. 2018 Nov 13. doi: 10.1158/1078-0432.CCR-18-2660. [Epub ahead of print]

PMID:
30425093
4.

Role of the mTOR pathway in minor salivary gland changes in Sjogren's syndrome and systemic sclerosis.

Soypaçacı Z, Gümüş ZZ, Çakaloğlu F, Özmen M, Solmaz D, Gücenmez S, Gercik Ö, Akar S.

Arthritis Res Ther. 2018 Aug 4;20(1):170. doi: 10.1186/s13075-018-1662-4.

5.

Exploring Biological Networks in 3D, Stereoscopic 3D, and Immersive 3D with iCAVE.

Kalayci S, Gümüş ZH.

Curr Protoc Bioinformatics. 2018 Mar;61(1):8.27.1-8.27.26. doi: 10.1002/cpbi.47.

PMID:
30040198
6.

"Biomimetic-electrochemical-sensory-platform" for biomolecule free cocaine testing.

Yilmaz Sengel T, Guler E, Arslan M, Gumus ZP, Sanli S, Aldemir E, Akbulut H, Odaci Demirkol D, Coskunol H, Timur S, Yagci Y.

Mater Sci Eng C Mater Biol Appl. 2018 Sep 1;90:211-218. doi: 10.1016/j.msec.2018.04.043. Epub 2018 Apr 18.

PMID:
29853084
7.

High-depth whole genome sequencing of an Ashkenazi Jewish reference panel: enhancing sensitivity, accuracy, and imputation.

Lencz T, Yu J, Palmer C, Carmi S, Ben-Avraham D, Barzilai N, Bressman S, Darvasi A, Cho JH, Clark LN, Gümüş ZH, Joseph V, Klein R, Lipkin S, Offit K, Ostrer H, Ozelius LJ, Peter I, Atzmon G, Pe'er I.

Hum Genet. 2018 Apr;137(4):343-355. doi: 10.1007/s00439-018-1886-z. Epub 2018 Apr 28.

PMID:
29705978
8.

Inhibition of colorectal cancer genomic copy number alterations and chromosomal fragile site tumor suppressor FHIT and WWOX deletions by DNA mismatch repair.

Jahid S, Sun J, Gelincik O, Blecua P, Edelmann W, Kucherlapati R, Zhou K, Jasin M, Gümüş ZH, Lipkin SM.

Oncotarget. 2017 May 10;8(42):71574-71586. doi: 10.18632/oncotarget.17776. eCollection 2017 Sep 22.

9.

Mobile Phone Sensing of Cocaine in a Lateral Flow Assay Combined with a Biomimetic Material.

Guler E, Yilmaz Sengel T, Gumus ZP, Arslan M, Coskunol H, Timur S, Yagci Y.

Anal Chem. 2017 Sep 19;89(18):9629-9632. doi: 10.1021/acs.analchem.7b03017. Epub 2017 Aug 28.

PMID:
28831804
10.

iCAVE: an open source tool for visualizing biomolecular networks in 3D, stereoscopic 3D and immersive 3D.

Liluashvili V, Kalayci S, Fluder E, Wilson M, Gabow A, Gümüs ZH.

Gigascience. 2017 Aug 1;6(8):1-13. doi: 10.1093/gigascience/gix054.

11.

SpotOn: High Accuracy Identification of Protein-Protein Interface Hot-Spots.

Moreira IS, Koukos PI, Melo R, Almeida JG, Preto AJ, Schaarschmidt J, Trellet M, Gümüş ZH, Costa J, Bonvin AMJJ.

Sci Rep. 2017 Aug 14;7(1):8007. doi: 10.1038/s41598-017-08321-2.

12.

KDM2B, an H3K36-specific demethylase, regulates apoptotic response of GBM cells to TRAIL.

Kurt IC, Sur I, Kaya E, Cingoz A, Kazancioglu S, Kahya Z, Toparlak OD, Senbabaoglu F, Kaya Z, Ozyerli E, Karahüseyinoglu S, Lack NA, Gümüs ZH, Onder TT, Bagci-Onder T.

Cell Death Dis. 2017 Jun 29;8(6):e2897. doi: 10.1038/cddis.2017.288.

13.

Testing of bioactive-nanovesicles on hepatotoxicity of atypical antipsychotics via digital holography.

Ozturk Kirbay F, Geyik C, Guler E, Yesiltepe O, Gumus ZP, Odaci Demirkol D, Coskunol H, Timur S.

Colloids Surf B Biointerfaces. 2017 Apr 1;152:289-295. doi: 10.1016/j.colsurfb.2017.01.006. Epub 2017 Jan 20.

PMID:
28126680
14.

The alterations of serum FGF-21 levels, metabolic and body composition in early breast cancer patients receiving adjuvant endocrine therapy.

Akyol M, Alacacioglu A, Demir L, Kucukzeybek Y, Yildiz Y, Gumus Z, Kara M, Salman T, Varol U, Taskaynatan H, Oflazoglu U, Bayoglu V, Tarhan MO.

Cancer Biomark. 2017;18(4):441-449. doi: 10.3233/CBM-161507.

PMID:
28106545
15.

Intrinsic K-Ras dynamics: A novel molecular dynamics data analysis method shows causality between residue pair motions.

Vatansever S, Gümüş ZH, Erman B.

Sci Rep. 2016 Nov 15;6:37012. doi: 10.1038/srep37012.

16.

Gene expression elucidates functional impact of polygenic risk for schizophrenia.

Fromer M, Roussos P, Sieberts SK, Johnson JS, Kavanagh DH, Perumal TM, Ruderfer DM, Oh EC, Topol A, Shah HR, Klei LL, Kramer R, Pinto D, Gümüş ZH, Cicek AE, Dang KK, Browne A, Lu C, Xie L, Readhead B, Stahl EA, Xiao J, Parvizi M, Hamamsy T, Fullard JF, Wang YC, Mahajan MC, Derry JM, Dudley JT, Hemby SE, Logsdon BA, Talbot K, Raj T, Bennett DA, De Jager PL, Zhu J, Zhang B, Sullivan PF, Chess A, Purcell SM, Shinobu LA, Mangravite LM, Toyoshiba H, Gur RE, Hahn CG, Lewis DA, Haroutunian V, Peters MA, Lipska BK, Buxbaum JD, Schadt EE, Hirai K, Roeder K, Brennand KJ, Katsanis N, Domenici E, Devlin B, Sklar P.

Nat Neurosci. 2016 Nov;19(11):1442-1453. doi: 10.1038/nn.4399. Epub 2016 Sep 26.

17.

Polypeptide with electroactive endgroups as sensing platform for the abused drug 'methamphetamine' by bioelectrochemical method.

Demir B, Yilmaz T, Guler E, Gumus ZP, Akbulut H, Aldemir E, Coskunol H, Colak DG, Cianga I, Yamada S, Timur S, Endo T, Yagci Y.

Talanta. 2016 Dec 1;161:789-796. doi: 10.1016/j.talanta.2016.09.042. Epub 2016 Sep 17.

PMID:
27769482
18.

A Novel Genetic Variant in Long Non-coding RNA Gene NEXN-AS1 is Associated with Risk of Lung Cancer.

Yuan H, Liu H, Liu Z, Owzar K, Han Y, Su L, Wei Y, Hung RJ, McLaughlin J, Brhane Y, Brennan P, Bickeboeller H, Rosenberger A, Houlston RS, Caporaso N, Landi MT, Heinrich J, Risch A, Christiani DC, Gümüş ZH, Klein RJ, Amos CI, Wei Q.

Sci Rep. 2016 Oct 7;6:34234. doi: 10.1038/srep34234.

19.

Bioconjugation and Applications of Amino Functional Fluorescence Polymers.

Geyik C, Guler E, Gumus ZP, Barlas FB, Akbulut H, Demirkol DO, Timur S, Yagci Y.

Macromol Biosci. 2017 Mar;17(3). doi: 10.1002/mabi.201600232. Epub 2016 Sep 30.

PMID:
27689764
20.

A Machine Learning Approach for Hot-Spot Detection at Protein-Protein Interfaces.

Melo R, Fieldhouse R, Melo A, Correia JD, Cordeiro MN, Gümüş ZH, Costa J, Bonvin AM, Moreira IS.

Int J Mol Sci. 2016 Jul 27;17(8). pii: E1215. doi: 10.3390/ijms17081215.

21.

An aptamer folding-based sensory platform decorated with nanoparticles for simple cocaine testing.

Guler E, Bozokalfa G, Demir B, Gumus ZP, Guler B, Aldemir E, Timur S, Coskunol H.

Drug Test Anal. 2017 Apr;9(4):578-587. doi: 10.1002/dta.1992. Epub 2016 Jun 23.

PMID:
27336666
22.

Complex Structured Fluorescent Polythiophene Graft Copolymer as a Versatile Tool for Imaging, Targeted Delivery of Paclitaxel, and Radiotherapy.

Guler E, Akbulut H, Geyik C, Yilmaz T, Gumus ZP, Barlas FB, Ahan RE, Demirkol DO, Yamada S, Endo T, Timur S, Yagci Y.

Biomacromolecules. 2016 Jul 11;17(7):2399-408. doi: 10.1021/acs.biomac.6b00491. Epub 2016 Jun 28.

PMID:
27305462
23.

Polypeptide Functional Surface for the Aptamer Immobilization: Electrochemical Cocaine Biosensing.

Bozokalfa G, Akbulut H, Demir B, Guler E, Gumus ZP, Odaci Demirkol D, Aldemir E, Yamada S, Endo T, Coskunol H, Timur S, Yagci Y.

Anal Chem. 2016 Apr 5;88(7):4161-7. doi: 10.1021/acs.analchem.6b00760. Epub 2016 Mar 14.

PMID:
26928030
24.

The Effects of Adjuvant Endocrine Treatment on Serum Leptin, Serum Adiponectin and Body Composition in Patients with Breast Cancer: The Izmir Oncology Group (IZOG) Study.

Akyol M, Demir L, Alacacioglu A, Ellidokuz H, Kucukzeybek Y, Yildiz Y, Gumus Z, Bayoglu V, Yildiz I, Salman T, Varol U, Kucukzeybek B, Demir L, Dirican A, Sutcu R, Tarhan MO.

Chemotherapy. 2016;61(2):57-64. doi: 10.1159/000440944. Epub 2015 Nov 17.

PMID:
26571369
25.

Quality of life in colorectal cancer patients: an Izmir Oncology Group (IZOG) study.

Akyol M, Ulger E, Alacacioglu A, Kucukzeybek Y, Bayoglu V, Yildiz Y, Yildiz I, Salman T, Varol U, Demir L, Dirican A, Gumus Z, Oktay Tarhan M.

J BUON. 2015 Jul-Aug;20(4):1015-22.

PMID:
26416050
26.

Rapidly Growing Thyroid Mass: An Unusual Case of Acute Lymphoblastic Leukemia.

Özdemirkıran F, Oruk G, Payzin B, Gümüş Z, Koruyucu M, Atasever T, Küçükzeybek B, Esen Ö.

Turk J Haematol. 2015 Sep;32(3):276-8. doi: 10.4274/tjh.2015.0136. No abstract available.

27.

Different disease subtypes with distinct clinical expression in familial Mediterranean fever: results of a cluster analysis.

Akar S, Solmaz D, Kasifoglu T, Bilge SY, Sari I, Gumus ZZ, Tunca M.

Rheumatology (Oxford). 2016 Feb;55(2):343-6. doi: 10.1093/rheumatology/kev315. Epub 2015 Sep 13.

PMID:
26370398
28.

Herbal infusions of black seed and wheat germ oil: Their chemical profiles, in vitro bio-investigations and effective formulations as Phyto-Nanoemulsions.

Gumus ZP, Guler E, Demir B, Barlas FB, Yavuz M, Colpankan D, Senisik AM, Teksoz S, Unak P, Coskunol H, Timur S.

Colloids Surf B Biointerfaces. 2015 Sep 1;133:73-80. doi: 10.1016/j.colsurfb.2015.05.044. Epub 2015 Jun 4.

PMID:
26087391
29.

Evaluation of factors associated with response to hepatitis B vaccination in patients with inflammatory bowel disease.

Cekic C, Aslan F, Krc A, Gümüs ZZ, Arabul M, Yüksel ES, Vatansever S, Yurtsever SG, Alper E, Ünsal B.

Medicine (Baltimore). 2015 Jun;94(22):e940. doi: 10.1097/MD.0000000000000940.

30.

Comprehensive models of human primary and metastatic colorectal tumors in immunodeficient and immunocompetent mice by chemokine targeting.

Chen HJ, Sun J, Huang Z, Hou H Jr, Arcilla M, Rakhilin N, Joe DJ, Choi J, Gadamsetty P, Milsom J, Nandakumar G, Longman R, Zhou XK, Edwards R, Chen J, Chen KY, Bu P, Wang L, Xu Y, Munroe R, Abratte C, Miller AD, Gümüş ZH, Shuler M, Nishimura N, Edelmann W, Shen X, Lipkin SM.

Nat Biotechnol. 2015 Jun;33(6):656-60. doi: 10.1038/nbt.3239. Epub 2015 May 25.

31.

miR-1269 promotes metastasis and forms a positive feedback loop with TGF-β.

Bu P, Wang L, Chen KY, Rakhilin N, Sun J, Closa A, Tung KL, King S, Kristine Varanko A, Xu Y, Huan Chen J, Zessin AS, Shealy J, Cummings B, Hsu D, Lipkin SM, Moreno V, Gümüş ZH, Shen X.

Nat Commun. 2015 Apr 15;6:6879. doi: 10.1038/ncomms7879.

32.

Sexual satisfaction, anxiety, depression and quality of life among Turkish colorectal cancer patients [Izmir Oncology Group (IZOG) study].

Akyol M, Ulger E, Alacacioglu A, Kucukzeybek Y, Yildiz Y, Bayoglu V, Gumus Z, Yildiz I, Salman T, Varol U, Ayakdas S, Tarhan MO.

Jpn J Clin Oncol. 2015 Jul;45(7):657-64. doi: 10.1093/jjco/hyv051. Epub 2015 Apr 10.

PMID:
25862825
33.

Epidermal cyst in an unusual site: A case report.

Pehlivan M, Özbay PÖ, Temur M, Yılmaz Ö, Gümüş Z, Güzel A.

Int J Surg Case Rep. 2015;8C:114-6. doi: 10.1016/j.ijscr.2015.01.001. Epub 2015 Jan 21.

34.

An unusual case of ulcerative colitis with Behçet's disease.

Cekiç C, Gümüş ZZ, Aslan F, Alper E, Sarıtaş Yüksel E, Akay S, Unsal B.

Turk J Gastroenterol. 2014 Oct;25(5):586-7. doi: 10.5152/tjg.2014.5367. No abstract available.

35.

Bio-active nanoemulsions enriched with gold nanoparticle, marigold extracts and lipoic acid: In vitro investigations.

Guler E, Barlas FB, Yavuz M, Demir B, Gumus ZP, Baspinar Y, Coskunol H, Timur S.

Colloids Surf B Biointerfaces. 2014 Sep 1;121:299-306. doi: 10.1016/j.colsurfb.2014.05.026. Epub 2014 Jun 23.

PMID:
25009101
36.

Integrative annotation of variants from 1092 humans: application to cancer genomics.

Khurana E, Fu Y, Colonna V, Mu XJ, Kang HM, Lappalainen T, Sboner A, Lochovsky L, Chen J, Harmanci A, Das J, Abyzov A, Balasubramanian S, Beal K, Chakravarty D, Challis D, Chen Y, Clarke D, Clarke L, Cunningham F, Evani US, Flicek P, Fragoza R, Garrison E, Gibbs R, Gümüş ZH, Herrero J, Kitabayashi N, Kong Y, Lage K, Liluashvili V, Lipkin SM, MacArthur DG, Marth G, Muzny D, Pers TH, Ritchie GRS, Rosenfeld JA, Sisu C, Wei X, Wilson M, Xue Y, Yu F; 1000 Genomes Project Consortium, Dermitzakis ET, Yu H, Rubin MA, Tyler-Smith C, Gerstein M.

Science. 2013 Oct 4;342(6154):1235587. doi: 10.1126/science.1235587.

37.

A microRNA miR-34a-regulated bimodal switch targets Notch in colon cancer stem cells.

Bu P, Chen KY, Chen JH, Wang L, Walters J, Shin YJ, Goerger JP, Sun J, Witherspoon M, Rakhilin N, Li J, Yang H, Milsom J, Lee S, Zipfel W, Jin MM, Gümüş ZH, Lipkin SM, Shen X.

Cell Stem Cell. 2013 May 2;12(5):602-15. doi: 10.1016/j.stem.2013.03.002.

38.

Chemokine 25-induced signaling suppresses colon cancer invasion and metastasis.

Chen HJ, Edwards R, Tucci S, Bu P, Milsom J, Lee S, Edelmann W, Gümüs ZH, Shen X, Lipkin S.

J Clin Invest. 2012 Sep;122(9):3184-96. doi: 10.1172/JCI62110. Epub 2012 Aug 6.

39.

miR-23a promotes the transition from indolent to invasive colorectal cancer.

Jahid S, Sun J, Edwards RA, Dizon D, Panarelli NC, Milsom JW, Sikandar SS, Gümüs ZH, Lipkin SM.

Cancer Discov. 2012 Jun;2(6):540-53. doi: 10.1158/2159-8290.CD-11-0267. Epub 2012 Mar 30.

40.

Rapid temporal changes in the expression of a set of neuromodulatory genes during alcohol withdrawal in the dorsal vagal complex: molecular evidence of homeostatic disturbance.

Freeman K, Staehle MM, Gümüş ZH, Vadigepalli R, Gonye GE, Nichols CN, Ogunnaike BA, Hoek JB, Schwaber JS.

Alcohol Clin Exp Res. 2012 Oct;36(10):1688-700. doi: 10.1111/j.1530-0277.2012.01791.x. Epub 2012 Apr 6.

41.

Resistance/response molecular signature for oral tongue squamous cell carcinoma.

Suresh A, Vannan M, Kumaran D, Gümüs ZH, Sivadas P, Murugaian EE, Kekatpure V, Iyer S, Thangaraj K, Kuriakose MA.

Dis Markers. 2012;32(1):51-64. doi: 10.3233/DMA-2012-0860.

42.

Effects of cigarette smoke on the human oral mucosal transcriptome.

Boyle JO, Gümüs ZH, Kacker A, Choksi VL, Bocker JM, Zhou XK, Yantiss RK, Hughes DB, Du B, Judson BL, Subbaramaiah K, Dannenberg AJ.

Cancer Prev Res (Phila). 2010 Mar;3(3):266-78. doi: 10.1158/1940-6207.CAPR-09-0192. Epub 2010 Feb 23.

43.

Effects of tobacco smoke on gene expression and cellular pathways in a cellular model of oral leukoplakia.

Gümüş ZH, Du B, Kacker A, Boyle JO, Bocker JM, Mukherjee P, Subbaramaiah K, Dannenberg AJ, Weinstein H.

Cancer Prev Res (Phila). 2008 Jul;1(2):100-11. doi: 10.1158/1940-6207.CAPR-08-0007. Epub 2008 Mar 31.

44.

Towards a quantitative representation of the cell signaling mechanisms of hallucinogens: measurement and mathematical modeling of 5-HT1A and 5-HT2A receptor-mediated ERK1/2 activation.

Chang CW, Poteet E, Schetz JA, Gümüş ZH, Weinstein H.

Neuropharmacology. 2009;56 Suppl 1:213-25. doi: 10.1016/j.neuropharm.2008.07.049. Epub 2008 Aug 13.

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